clusterGenes.pl - Graph analysis of prophage clusters
generate_Matrix_CSV_AlisEdits.ipynb - Pairwise sequence analysis
get_EDGES.pl - Creates list of genes found in a cluster
make_Edge_list.pl - Creates list of phage that share genes, and the # of genes shared
Make_matrix.pl - Create Matrix of grouped genes in phage dataset
runBlast.pl - Blast comparison for multiple fasta files
Staph_wgs.txt - S. aureus files downloaded/used from NCBI